Sned1 sushi, nidogen and EGF-like domains 1 [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Sned1provided by MGI
Official Full Name: sushi, nidogen and EGF-like domains 1provided by MGI
Primary source: MGI:MGI:3045960
See related: Ensembl:ENSMUSG00000047793 AllianceGenome:MGI:3045960
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Mus musculus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as: SST3; Snep; 6720455I24Rik; D430044C15Rik
Summary: Predicted to enable Notch binding activity. Predicted to be involved in cell-matrix adhesion. Predicted to be located in extracellular region. Is expressed in several structures, including alimentary system; central nervous system; embryo mesenchyme; limb interdigital region; and mesothelium. Orthologous to human SNED1 (sushi, nidogen and EGF like domains 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Broad expression in ovary adult (RPKM 13.0), limb E14.5 (RPKM 9.8) and 20 other tissues See more
Orthologs: human all
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Genomic context

Location:: 1 D; 1 47.21 cM

Exon count:: 31

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	1	NC_000067.7 (93163563..93228787)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	1	NC_000067.6 (93235796..93301065)

Chromosome 1 - NC_000067.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: Mouse ENCODE transcriptome data
Description: RNA profiling data sets generated by the Mouse ENCODE project.
BioProject: PRJNA66167
Publication: PMID 25409824
Analysis date: n/a

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Knockout of the gene encoding the extracellular matrix protein SNED1 results in early neonatal lethality and craniofacial malformations.
Title: Knockout of the gene encoding the extracellular matrix protein SNED1 results in early neonatal lethality and craniofacial malformations.
comparative expression analysis of kidney stroma markers suggests that Snep is expressed in a specific subpopulation of stromal cells and may provide environmental cues to support regular development
Title: Cloning and expression analysis of the mouse stroma marker Snep encoding a novel nidogen domain protein.

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Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics (MGI)

Targeted (4) 1 citation
Endonuclease-mediated (3)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

RH126370 (e-PCR)
- UniSTS:163078

AI642697 (e-PCR)
- UniSTS:178438

RH135953 (e-PCR)
- UniSTS:209949

18.MMHAP23FLF3.seq (e-PCR)
- UniSTS:123372

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables Notch binding	IBA Inferred from Biological aspect of Ancestor more info
enables calcium ion binding	IEA Inferred from Electronic Annotation more info
enables molecular_function	ND No biological Data available more info

Process	Evidence Code	Pubs
involved_in biological_process	ND No biological Data available more info
involved_in cell-matrix adhesion	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
located_in extracellular matrix	IDA Inferred from Direct Assay more info	PubMed
located_in extracellular matrix	ISO Inferred from Sequence Orthology more info
located_in extracellular region	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: sushi, nidogen and EGF-like domain-containing protein 1

Names: secreted nidogen domain protein; secreted protein SST-3; secreted protein SST3; stromal nidogen extracellular matrix protein

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

NM_172463.5 → NP_766051.4 sushi, nidogen and EGF-like domain-containing protein 1 precursor

See identical proteins and their annotated locations for NP_766051.4

Status: VALIDATED

Source sequence(s)

AC124669

Consensus CDS

CCDS35670.1

UniProtKB/Swiss-Prot

A6H6I3, Q70E20, Q810H2, Q8BMD9

UniProtKB/TrEMBL

A0A0R4J0N0

Related

ENSMUSP00000050832.8, ENSMUST00000062202.14

Conserved Domains (5) summary

cd00033
Location:698 → 752

CCP; Complement control protein (CCP) modules (aka short consensus repeats SCRs or SUSHI repeats) have been identified in several proteins of the complement system

smart00060
Location:1005 → 1084

FN3; Fibronectin type 3 domain

smart00539
Location:104 → 260

NIDO; Extracellular domain of unknown function in nidogen (entactin) and hypothetical proteins

cd00054
Location:311 → 347

EGF_CA; Calcium-binding EGF-like domain, present in a large number of membrane-bound and extracellular (mostly animal) proteins. Many of these proteins require calcium for their biological function and calcium-binding sites have been found to be located at the ...

pfam00041
Location:908 → 988

fn3; Fibronectin type III domain